ENSG00000225828

1 Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

Notes on IDR and IDR_w_binding: As the prediction of Intrinsically Disordered Regions (IDR) and Intrinsically Disordered Binding Regions (IDBR) are done by two different tools we require two things to annotate the Intrinsically Disordered Binding Regions (IDBR). Firstly the IDBR (predicted by ANCHOR2) must be a region of at least 15 amino acids (after the smoothing). Secondly the fraction of the IDBR which overlaps the IDR predictions (done by IUPred3, again after smoothing) must be at least 80%. When that is the case the IDR type will be annotated as “IDR_w_binding_region” instead of just “IDR”. The current default parameters have not been rigorously tested and should be considered experimental.

For the function of any other domain, please Click HERE to search it through Pfam database.

Results

isoform_id gene_id condition_1 condition_2 gene_name gene_biotype iso_biotype gene_overall_mean gene_value_1 gene_value_2 gene_stderr_1 gene_stderr_2 gene_log2_fold_change iso_overall_mean iso_value_1 iso_value_2 iso_stderr_1 iso_stderr_2 iso_log2_fold_change IF_overall IF1 IF2 dIF isoform_switch_q_value gene_switch_q_value PTC codingPotential
ENST00000416512 ENSG00000225828 HEK293_OSMI2_6hA HEK293_TMG_6hB FAM229A protein_coding retained_intron 10.96251 15.52895 6.490469 3.010994 0.3986505 -1.257273 8.536960 11.478247 5.7797711 2.076797 0.4524734 -0.9885805 0.8002750 0.7445333 0.89140000 0.1468667 0.324218197 0.006899013   FALSE
ENST00000428500 ENSG00000225828 HEK293_OSMI2_6hA HEK293_TMG_6hB FAM229A protein_coding protein_coding 10.96251 15.52895 6.490469 3.010994 0.3986505 -1.257273 2.057861 3.468925 0.4154008 0.904424 0.1241875 -3.0317470 0.1660625 0.2175667 0.06216667 -0.1554000 0.006899013 0.006899013   FALSE
  • Note:
    • The comparisons made can be identified as “from ‘condition_1’ to ‘condition_2’”, meaning ‘condition_1’ is considered the ground state and ‘condition_2’ the changed state. This also means that a positive dIF value indicates that the isoform usage is increased in ‘condition_2’ compared to ‘condition_1’. Since the ‘isoformFeatures’ entry is the most relevant part of the switchAnalyzeRlist object, the most-used standard methods have also been implemented to work directly on isoformFeatures.

2 Differential Exon Usage

Counts

All exons whithin this gene region are shown and numbering below.

Expression

All exons whithin this gene region are shown and numbering below.

Splicing

All exons whithin this gene region are shown and numbering below.

Transcripts

All isoforms whithin this gene region are shown below.

Results

groupID featureID exonBaseMean dispersion pvalue padj seqnames start end width strand HEK293_TMG_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000225828 E001 0.1723744 0.030194033 1.0000000000   1 32361270 32361270 1 - 0.000 0.070 7.737
ENSG00000225828 E002 3.4795402 0.008315820 0.9775722363 0.990562125 1 32361271 32361297 27 - 0.599 0.581 -0.079
ENSG00000225828 E003 42.7401583 0.009871907 0.0637153952 0.211075036 1 32361298 32361535 238 - 1.470 1.589 0.410
ENSG00000225828 E004 17.3629488 0.002626889 0.0659136318 0.215987014 1 32361536 32361564 29 - 1.067 1.225 0.564
ENSG00000225828 E005 4.4822527 0.107813461 0.9204357410 0.962465650 1 32361729 32361729 1 - 0.662 0.664 0.009
ENSG00000225828 E006 35.7223209 0.073878906 0.3563265488 0.592822127 1 32361730 32361876 147 - 1.398 1.510 0.387
ENSG00000225828 E007 21.3012508 0.002300748 0.0019459161 0.016704308 1 32361877 32361957 81 - 1.045 1.319 0.976
ENSG00000225828 E008 26.3061270 0.002112724 0.0004391024 0.005120489 1 32361958 32362051 94 - 1.129 1.413 0.999
ENSG00000225828 E009 554.0436775 0.002076902 0.0017663181 0.015473096 1 32362052 32364074 2023 - 2.715 2.652 -0.210
ENSG00000225828 E010 105.3051570 0.655858342 0.5940394063 0.766372976 1 32364075 32364278 204 - 2.001 1.932 -0.230